MmuINT1030809 @ mm10
Intron Retention
Gene
ENSMUSG00000040364 | Sec1
Description
secretory blood group 1 [Source:MGI Symbol;Acc:MGI:1928893]
Coordinates
chr7:45684180-45685355:-
Coord C1 exon
chr7:45685266-45685355
Coord A exon
chr7:45684292-45685265
Coord C2 exon
chr7:45684180-45684291
Length
974 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
GCAGCCACGCTTTCCCACAGGGA
3' ss Score
5.68
Exon sequences
Seq C1 exon
GTGTGTAGCCAGAGAAGAGTGCTGAGGGAAGGTGGTGCTGAAGGAGCTGGAAACCAACAAAGCCTTGGAGTTAGAGAGCAGACCCCTCAG
Seq A exon
GTACTGGGAAGGCAGAGCCTGGCCTTCCTTTAGGGCTCAGGGTGTTGGGGCCCTGCACTTACTTTTCTGGGACTTGCTGGGAGGTGGCCCCACTTGCTACCCCAAATCTCAGACCTGGACCCAAATCCCTCCACACTCCACAAGCACTCAGCCCCCGAGCAGATGGGGGCCAGTGCTGGGGGTAGATGATATGGGAGGAAAAAAAGCAGGAGGTGGCATAAGGTGTGTGCCCGATGCCAAGGCACTTAGAAACCAGAAATCCAGAGCCTAAGGAGTGCTAGGAGCCAGAGGACTAAGGCTTTCAGCTTCCCCCACATAGGACTGGGGATCTTGGGACTTTCCTGAGCCCCCTGCATGTACCCTTACCTCCAGACATCAGAGCCCTGTGCTCCACTGACATTTCCCAGGCAGGGTGCCTCCCTTGCCCAGTCCATAGACTCCCTGCCCCCGGGAGTCTGAGCCATTATGCACCCATAGCCTCCCCCACCCCAGCCCCTCATGTAAACACGTTTCTTGCTAGGTAATTTCAAGGTCCCACCTTCCGGCTCTCAACACCGTGAAGTACCAGGCTGTGAGTTCTCTGTGTTCTTGGGGTTAGGCAGAAACTAGCCCTTGCCCGTTTGGGCCTACAGCATTCCTACCTCTCAGTGGCAGGCCCATCCAAATTCCCTGGGCCAGTGGGATCCATAAGGGACTCTGCCTGCCTGCCCCTCTTCAGCATGCACCTCCTACCTGGCTATTAGGGCCCAGCCATTGGTCAAACCTGCCTGGAGAAGAAAAGAGTGTCCTGTAGTCGGTCATCCCCACACTCTTCTGTAGGAGAAGCACTTGGAGGGCTCTCGGGAGGAGTGAGAGTGGCTGTTCTCAGGCCCAGGCTAGTGGGGGTTCTGGGCGGGAGCTGAAAGCAGAGCCCGCAGAATCCAACACTACCGCCCACCCAAACCCTAGCCAACAGCAGCCACGCTTTCCCACAG
Seq C2 exon
GGACCCTTGCCAGCCATGCCACCCGAGACTGCGTGGGACAGGAGCACTGTCGCCCCCAGCAGGCTTGAAGCTTGGTGGCCCCAAACAAGCCGGCCTAGAAGGATCCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040364:ENSMUST00000040636:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.030
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGTAGCCAGAGAAGAGTGC
R:
CTGCTTGGATCCTTCTAGGCC
Band lengths:
202-1176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types